Construction and characterisation of a structured, tuneable, and transparent 3D culture platform for soil bacteria

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Abstract

We have developed a tuneable workflow for the study of soil microbes in an imitative 3D soil environment that is compatible with routine and advanced optical imaging, is chemically customisable, and is reliably refractive index matched based on the carbon catabolism of the study organism. We demonstrate our transparent soil pipeline with two representative soil organisms, Bacillus subtilis and Streptomyces coelicolor, and visualise their colonisation behaviours using fluorescence microscopy and mesoscopy. This spatially structured, 3D approach to microbial culture has the potential to further study the behaviour of bacteria in conditions matching their native environment and could be expanded to study microbial interactions, such as competition and warfare.

Original languageEnglish
Article number001429
Number of pages10
JournalMicrobiology
Volume170
Issue number1
DOIs
Publication statusPublished - 30 Jan 2024

Keywords

  • bacterial culture
  • optical microscopy
  • soil microbiology
  • bacterial colonisation

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